------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/indexinfo-0.3.1.txz Installing /packages/All/gettext-runtime-0.21.txz Installing /packages/All/gmake-4.3_2.txz SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> minimap2-2.17 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> minimap2-2.17 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by minimap2-2.17 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> minimap2-2.17 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by minimap2-2.17 for building => SHA256 Checksum OK for lh3-minimap2-v2.17_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> minimap2-2.17 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by minimap2-2.17 for building ===> Extracting for minimap2-2.17 => SHA256 Checksum OK for lh3-minimap2-v2.17_GH0.tar.gz. Extracted Memory Use: 0.96M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for minimap2-2.17 ===> Applying ports patches for minimap2-2.17 from /xports/biology/minimap2/files SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> minimap2-2.17 depends on package: gmake>=4.3 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> minimap2-2.17 depends on package: gmake>=4.3 - found ===> Configuring for minimap2-2.17 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for minimap2-2.17 gmake[1]: Entering directory '/construction/biology/minimap2/minimap2-2.17' cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC main.c -o main.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC kthread.c -o kthread.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC kalloc.c -o kalloc.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC misc.c -o misc.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC bseq.c -o bseq.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC sketch.c -o sketch.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC sdust.c -o sdust.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC options.c -o options.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC index.c -o index.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC chain.c -o chain.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC align.c -o align.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC hit.c -o hit.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC map.c -o map.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC format.c -o format.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC pe.c -o pe.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC esterr.c -o esterr.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -DHAVE_KALLOC splitidx.c -o splitidx.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse2 -DHAVE_KALLOC ksw2_ll_sse.c -o ksw2_ll_sse.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_extz2_sse.c -o ksw2_extz2_sse41.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_extd2_sse.c -o ksw2_extd2_sse41.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_exts2_sse.c -o ksw2_exts2_sse41.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse2 -mno-sse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY ksw2_extz2_sse.c -o ksw2_extz2_sse2.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse2 -mno-sse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY ksw2_extd2_sse.c -o ksw2_extd2_sse2.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse2 -mno-sse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY ksw2_exts2_sse.c -o ksw2_exts2_sse2.o cc -c -pipe -O2 -fno-strict-aliasing -Wc++-compat -msse4.1 -DHAVE_KALLOC -DKSW_CPU_DISPATCH ksw2_dispatch.c -o ksw2_dispatch.o ar -csru libminimap2.a kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o chain.o align.o hit.o map.o format.o pe.o esterr.o splitidx.o ksw2_ll_sse.o ksw2_extz2_sse41.o ksw2_extd2_sse41.o ksw2_exts2_sse41.o ksw2_extz2_sse2.o ksw2_extd2_sse2.o ksw2_exts2_sse2.o ksw2_dispatch.o /usr/libexec/binutils227/elf/ar: `u' modifier ignored since `D' is the default (see `U') cc -pipe -O2 -fno-strict-aliasing -Wc++-compat main.o -o minimap2 -L. -lminimap2 -lm -lz -lpthread gmake[1]: Leaving directory '/construction/biology/minimap2/minimap2-2.17' SUCCEEDED 00:00:05 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for minimap2-2.17 ===> Generating temporary packing list gmake[1]: Entering directory '/construction/biology/minimap2/minimap2-2.17' mkdir -p /construction/biology/minimap2/stage/usr/local/bin mkdir -p /construction/biology/minimap2/stage/usr/local/man/man1 install -c minimap2 /construction/biology/minimap2/stage/usr/local/bin install -c minimap2.1 /construction/biology/minimap2/stage/usr/local/man/man1 strip /construction/biology/minimap2/stage/usr/local/bin/minimap2 gmake[1]: Leaving directory '/construction/biology/minimap2/minimap2-2.17' ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for minimap2-2.17 file sizes/checksums [2]: 0% file sizes/checksums [2]: 100% packing files [2]: 0% packing files [2]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:00:09